mgkit.counts.scaling module¶
Scaling functions for counts
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mgkit.counts.scaling.scale_deseq(dataframe)[source]¶ New in version 0.1.13.
Scale a dataframe using the deseq scaling. Uses
scale_factor_deseq()
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mgkit.counts.scaling.scale_factor_deseq(dataframe)[source]¶ New in version 0.1.13.
Returns the scale factor according to he deseq paper. The columns of the dataframe are the samples.
size factor \(\hat{s}_{j}\) for sample j (from DESeq paper).
\[\hat{s}_{j} = median_{i} ( \frac {k_{ij}} { \left ( \prod_{v=1}^{m} k_{iv} \right )^{1/m} } )\]